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Summary

Unique Genes: 248
Unique Isoforms: 1609

Gene classification

Characterization of transcripts based on splice junctions

Splice Junction Classification

Gene Characterization

Number of Isoforms per Gene

Isoforms Number x-Axis

Kown vs Novel Genes

Transcript Length

Classification

Normalized Classification

All Transcripts

By Structural Category

Mono- vs Multi-Exons

By Sample

Mono- vs Multi-Exons, By Sample

Exon Structure

Quantification

Gene Expression, Annotated vs Novel

Number of FL reads per Gene by type of gene annotation

Structural Isoform Characterization by Splice Junctions

Structural Categories

Isoform distribution across structural categories

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Transcript Lengths by Structural Classification

Exon Counts by Structural Classification

Transcript Expression by Structural Category

FL Count (normalized) by Structural Category

Subcategories

Isoform Distribution Across Subcategories

Transcript Expression by Subcategories

FL Count (normalized) by Subcategories

Transcript Lengths by Subcategories

Exon Counts by Subcategories

Matched Reference Transcripts

Length Distribution of Matched Reference Transcripts

Exon Count Distribution of Matched Reference Transcripts

Other Plots

Gene Expression between NNC and not NNC containing Genes

Splice Junction Characterization

Distribution

Distribution of Splice Junctions by Structural Classification

Distribution of Transcripts by Splice Junctions

RT-switching

RT-switching, all junctions

RT-switching, unique junctions

Comparison with Annotated TSS and TTS

FSM only

Distance to Annotated Polyadenylation Site, FSM only

Distance to Annotated Transcription Start Site, FSM only

ISM only

Distance to Annotated Polyadenylation Site, ISM only

Distance to Annotated Transcription Start Site, ISM only

Comparison With Annotated TSS and TTS by Subcategories

ISM subcategories

Distance to Annotated Polyadenylation Site for ISM

Distance to Annotated Transcription Start Site for ISM

ISM subcategories (%)

Distance to Annotated Polyadenylation Site for ISM

Distance to Annotated Transcription Start Site for ISM

PolyA Distance Analysis

PolyA motif

PolyA Subcategories

CAGE distances analysis

Multi-exonic FSM

Distance to CAGE peak of multi-exonic FSM

Multi-exonic ISM

Distance to CAGE peak of multi-exonic ISM

Multi-exonic NIC/NNC

Distance to CAGE peak of multi-exonic NIC

Distance to CAGE peak of multi-exonic NNC

Redundancy Analysis

Only FSM

Only FSM

Only FSM with CAGE support

Only FSM with polyA motif found

Only FSM with CAGE support and polyA motif

Only ISM

Only ISM

Only ISM with CAGE support

Only ISM with polyA motif found

Only ISM with CAGE support and polyA motif

FSM+ISM

FSM+ISM

FSM+ISM with CAGE support

FSM+ISM with polyA motif found

FSM+ISM with CAGE support and polyA motif

Intra-Priming Quality Check

By Structural Category

Mono- vs Multi-Exon

Coding vs Non-Coding

Bad Quality Controls

RT-switching

Incidence of RT-switching

Jounctions

Incidence of Non-Canonical Junctions

Incidence of SJ without SR coverage Junctions

By Structural Category

Incidence of NMD by structural category

QC Features of Bad Quality attributes across structural categories

NMD

Combined

Good Quality Controls

Cage Support

Annotation Support

PolyA Support

Junctions

Percentage of All Canonical Junctions

Percentage of Splice Junctions With Short Read Coverage

Attributes